Epigenetic Alterations of Chromosome 3 Revealed by NotI-Microarrays in Clear Cell Renal Cell Carcinoma

• DOI: 10.1155/2014/735292
• Publication Date: 2014-05-22T17:16:25Z
• Authors: Alexey A. Dmitriev; Evgeniya E. Rudenko; Anna V. Kudryavtseva; George S. Krasnov; Vasily V. Gordiyuk; Nataliya V. Melni...; Eduard O. Stakhovsky; Oleksii A. Kononenko; Larissa S. Pavlova; Tatiana T. Kondra...; Boris Y. Alekseev; Eleonora A. Braga; Vera N. Senchenko; Vladimir I. Kashuba
• Keywords: Genetic Markers; 0301 basic medicine; 2. Zero hunger; Genetic Variation; Kidney Neoplasms; Epigenesis, Genetic; Neoplasm Proteins; 3. Good health; 03 medical and health sciences; Humans; Chromosomes, Human, Pair 3; Chromosome Deletion; Carcinoma, Renal Cell; Research Article; Oligonucleotide Array Sequence Analysis

This study aimed to clarify epigenetic and genetic alterations that occur during renal carcinogenesis. The original method includes chromosome 3 specific NotI-microarrays containing 180 NotI-clones associated with 188 genes for hybridization 23 paired normal/tumor DNA samples of primary clear cell carcinomas (ccRCC). Twenty-two showed methylation and/or deletion in 17–57% tumors. These include tumor suppressors or candidates ( VHL, CTDSPL, LRRC3B, ALDH1L1 , EPHB1 ) were not previously considered as cancer-associated (e.g., LRRN1, GORASP1, FGD5 PLCL2 ). Bisulfite sequencing analysis confirmed a frequent event ccRCC. A set six markers NKIRAS1/RPL15, GORASP1/TTC21A VHL was suggested ccRCC detection biopsies. mRNA level decrease shown 6 NotI-associated using quantitative PCR: FOXP1, FGD5, PLCL2, . majority examined distinct expression profiles papillary RCC. strongest extent frequency downregulation gene both Moreover, the more pronounced histological types RCC stage III compared stages I II (<mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" id="M1"><mml:mi>P</mml:mi><mml:mo>=</mml:mo><mml:mn fontstyle="italic">0.03</mml:mn></mml:math>). same observed id="M2"><mml:mi>P</mml:mi><mml:mo>&lt;</mml:mo><mml:mn fontstyle="italic">0.06</mml:mn></mml:math>).